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Commit 811b1a54 authored by james94's avatar james94
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cluster config pretext

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......@@ -5,6 +5,78 @@ __default__:
qos: 'standard'
#### PRETEXT ####
unzipHiC_R1:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 96000
time: "00:30:05"
symlinkUnzippedHiC_R1:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 500
time: "00:05:00"
unzipHiC_R2:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 96000
time: "00:30:05"
symlinkUnzippedHiC_R2:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 500
time: "00:05:00"
pretext_index_PRI_asm:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_fastq2bam_R1:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_fastq2bam_R2:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_filter_5primeEnd_R1:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_filter_5primeEnd_R2:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_filtered_combine:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_map:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 9500
time: "02:30:00"
pretext_snapshot:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 500
time: "00:10:00"
pretextMaps2md:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 500
time: "00:10:00"
unzipFasta_PRI:
jobname: GEP.{rule}.{wildcards.asmID}
memory: 500
......@@ -100,8 +172,8 @@ aggregateReport:
makePDF:
jobname: GEP.{rule}
memory: 500
time: "00:05:05"
memory: 1000
time: "00:10:05"
###### Rules for illuminadb building ##########
......@@ -211,17 +283,17 @@ symlinkfornotSmartTrimmed:
time: "00:05:05"
fastqc_hifi_SMRT_removed:
fastqc_hifi:
jobname: GEP.{rule}.{wildcards.sample}.{wildcards.readCounter}.{wildcards.smrtornot}
memory: 12000
time: "00:45:05"
multiqc_hifi_SMRTremoved:
multiqc_hifi:
jobname: GEP.{rule}.{wildcards.sample}.{wildcards.readCounter}.{wildcards.smrtornot}
memory: 4000
time: "00:15:05"
meryl_hifi_trimmed_count:
meryl_hifi_count:
jobname: GEP.{rule}.{wildcards.sample}.{wildcards.readCounter}.{wildcards.smrtornot}.{wildcards.kmer}
memory: 96000
time: "02:30:05"
......
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